Abstract: Based on industrial chain theory, industrial resilience theory, and innovation ecosystem theory, a coupling coordination degree model is constructed to measure the development level of industrial integration clusters for the digital economy industry and manufacturing industry, and to explore the mechanism of enhancing the resilience of the manufacturing industry chain through the development of industrial integration clusters. The research finds that the development of industrial convergence cluster can promote the toughness of manufacturing industry chain and industrial collaborative innovation, and industrial collaborative innovation can significantly enhance the toughness of manufacturing industry chain. The symbiosis of innovation ecosystem plays a significant moderating role in the relationship between the development of industrial convergence clusters and the resilience of the manufacturing industry chain. This has opened up new ideas and provided new paths for enhancing the resilience of China’s manufacturing industry in terms of industrial integration clusters, industrial collaborative innovation, and innovation ecosystems.